Plant Circular RNA Database

Detail information of Os02g0702800_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os02g0702800_circ_g.5
					
						ID in PlantcircBase
						osa_circ_016138
					
						Alias
						Os_ciR2888
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 28970995-28971385  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os02g0702800						
					
						Parent gene annotation
						
							Similar to Syntaxin 22 (AtSYP22) (AtVAM3). (Os02t0702800-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0702800_circ_g.1 Os02g0702800_circ_g.2 Os02g0702800_circ_g.3 Os02g0702800_circ_g.4 Os02g0702800_circ_g.6 						
					
						Support reads
						4
					
						Tissues
						root
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							CT-AC							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						Os02t0702800-01:2

General Information
CircRNA Name	Os02g0702800_circ_g.5
ID in PlantcircBase	osa_circ_016138
Alias	Os_ciR2888
Organism	Oryza sativa
Position	chr2: 28970995-28971385 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os02g0702800
Parent gene annotation	Similar to Syntaxin 22 (AtSYP22) (AtVAM3). (Os02t0702800-01)
Parent gene strand	-
Alternative splicing	Os02g0702800_circ_g.1 Os02g0702800_circ_g.2 Os02g0702800_circ_g.3 Os02g0702800_circ_g.4 Os02g0702800_circ_g.6
Support reads	4
Tissues	root
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	CT-AC The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	Os02t0702800-01:2

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
						 Sequences
					
						Splice junction sequence  
						
							ACTAACACTAGTATCGGCGTTCTTGTCTGCCTCAGCAGCTCTCCTGAGCTTCTCCTTCGCATCC
TTTGCCAATTGAAGAATGTTATGACTAGTCTTCTGCtttggctgagatgtctggggaacaactg
gcttatatgccatctccctttgaatcgcaagattttgaagttttccatactcctccatcgtcgt
ggcaaaat

						Assembled circRNA sequence  
						
							Yes
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

						Full-length trsnacripts
						
							Transcript length: 168
Transcript exons: 28970995-28971105,28971329-28971385
TTTGGCTGAGATGTCTGGGGAACAACTGGCTTATATGCCATCTCCCTTTGAATCGCAAGATTTT
GAAGTTTTCCATACTCCTCCATCGTCGTGGCAAAATCCTTGGCAAGCCTGAGCTTCTCCTTCGC
ATCCTTTGCCAATTGAAGAATGTTATGACTAGTCTTCTGC
Transcript length: 231
Transcript exons: 28970995-28971131,28971292-28971385
TTTGGCTGAGATGTCTGGGGAACAACTGGCTTATATGCCATCTCCCTTTGAATCGCAAGATTTT
GAAGTTTTCCATACTCCTCCATCGTCGTGGCAAAATCCTTGGCAAGCTTCATGTCAGCAACCCT
CTTGTCTGCACTAGTATCGGCGTTCTTGTCTGCCTCAGCAGCTCTCCTGAGCTTCTCCTTCGCA
TCCTTTGCCAATTGAAGAATGTTATGACTAGTCTTCTGC
						
						Genomic sequence
						
							TTTGGCTGAGATGTCTGGGGAACAACTGGCTTATATGCCATCTCCCTTTGAATCGCAAGATTTT
GAAGTTTTCCATACTCCTCCATCGTCGTGGCAAAATCCTTGGCAAGCTTCATGTCAGCAACCCT
CTTGTCTGCCTGCACATGATACCCAGATTCCTAATCACTATGGTAGCTAAGTAAACTAAGAGCA
GAAAGATGCATACATGATCACACATATAGTTGGAAACAGTCTTGTCCAAGACAAATTCACTGGG
CTAAAACAAAGGGTATAAATAAACAGTAAATTACTACTAACACTAGTATCGGCGTTCTTGTCTG
CCTCAGCAGCTCTCCTGAGCTTCTCCTTCGCATCCTTTGCCAATTGAAGAATGTTATGACTAGT
CTTCTGC

Sequences
Splice junction sequence	ACTAACACTAGTATCGGCGTTCTTGTCTGCCTCAGCAGCTCTCCTGAGCTTCTCCTTCGCATCC TTTGCCAATTGAAGAATGTTATGACTAGTCTTCTGCtttggctgagatgtctggggaacaactg gcttatatgccatctccctttgaatcgcaagattttgaagttttccatactcctccatcgtcgt ggcaaaat
Assembled circRNA sequence	Yes The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	Transcript length: 168 Transcript exons: 28970995-28971105,28971329-28971385 TTTGGCTGAGATGTCTGGGGAACAACTGGCTTATATGCCATCTCCCTTTGAATCGCAAGATTTT GAAGTTTTCCATACTCCTCCATCGTCGTGGCAAAATCCTTGGCAAGCCTGAGCTTCTCCTTCGC ATCCTTTGCCAATTGAAGAATGTTATGACTAGTCTTCTGC Transcript length: 231 Transcript exons: 28970995-28971131,28971292-28971385 TTTGGCTGAGATGTCTGGGGAACAACTGGCTTATATGCCATCTCCCTTTGAATCGCAAGATTTT GAAGTTTTCCATACTCCTCCATCGTCGTGGCAAAATCCTTGGCAAGCTTCATGTCAGCAACCCT CTTGTCTGCACTAGTATCGGCGTTCTTGTCTGCCTCAGCAGCTCTCCTGAGCTTCTCCTTCGCA TCCTTTGCCAATTGAAGAATGTTATGACTAGTCTTCTGC
Genomic sequence	TTTGGCTGAGATGTCTGGGGAACAACTGGCTTATATGCCATCTCCCTTTGAATCGCAAGATTTT GAAGTTTTCCATACTCCTCCATCGTCGTGGCAAAATCCTTGGCAAGCTTCATGTCAGCAACCCT CTTGTCTGCCTGCACATGATACCCAGATTCCTAATCACTATGGTAGCTAAGTAAACTAAGAGCA GAAAGATGCATACATGATCACACATATAGTTGGAAACAGTCTTGTCCAAGACAAATTCACTGGG CTAAAACAAAGGGTATAAATAAACAGTAAATTACTACTAACACTAGTATCGGCGTTCTTGTCTG CCTCAGCAGCTCTCCTGAGCTTCTCCTTCGCATCCTTTGCCAATTGAAGAATGTTATGACTAGT CTTCTGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.386546078

Conservation Information
Conserved circRNAs	NA
PMCS	0.386546078

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28971371-28971382(+)
28971112-28970997(-)
28971072-28971109(-)
						
						Potential amino acid sequence
						
							MTSLLLWLRCLGNNWLICHLPLNRKILKFSILLHRRGKILGKLHVSNPLVCTSIGVLVCLSSSP
ELLLRILCQLKNVMTSLLLWLRCLGNNWLICHLPLNRKILKFSILLHRRGKILGKLHVSNPLVC
TSIGVLVCLSSSPELLLRILCQLKNVMTSLLLWLRCLGNNWLICHLPLNRKILKFSILLHRRGK
ILGKLHVSNPLVCTSIGVLVCLSSSPELLLRILCQLKNVMTSLL(+)
MKLAKDFATTMEEYGKLQNLAIQREMAYKPVVPQTSQPKQKTSHNILQLAKDAKEKLRRAAEAD
KNADTSADKRVADMKLAKDFATTMEEYGKLQNLAIQREMAYKPVVPQTSQPKQKTSHNILQLAK
DAKEKLRRAAEADKNADTSADKRVADMKLAKDFATTMEEYGKLQNLAIQREMAYKPVVPQTSQP
KQKTSHNILQLAKDAKEKLRRAAEADKNADTSADKRVADMKLAKDFATTMEEYGKLQNLAIQRE
MAYKPVVPQTSQP(-)
MENFKILRFKGRWHISQLFPRHLSQSRRLVITFFNWQRMRRRSSGELLRQTRTPILVQTRGLLT
*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28971371-28971382(+) 28971112-28970997(-) 28971072-28971109(-)
Potential amino acid sequence	MTSLLLWLRCLGNNWLICHLPLNRKILKFSILLHRRGKILGKLHVSNPLVCTSIGVLVCLSSSP ELLLRILCQLKNVMTSLLLWLRCLGNNWLICHLPLNRKILKFSILLHRRGKILGKLHVSNPLVC TSIGVLVCLSSSPELLLRILCQLKNVMTSLLLWLRCLGNNWLICHLPLNRKILKFSILLHRRGK ILGKLHVSNPLVCTSIGVLVCLSSSPELLLRILCQLKNVMTSLL(+) MKLAKDFATTMEEYGKLQNLAIQREMAYKPVVPQTSQPKQKTSHNILQLAKDAKEKLRRAAEAD KNADTSADKRVADMKLAKDFATTMEEYGKLQNLAIQREMAYKPVVPQTSQPKQKTSHNILQLAK DAKEKLRRAAEADKNADTSADKRVADMKLAKDFATTMEEYGKLQNLAIQREMAYKPVVPQTSQP KQKTSHNILQLAKDAKEKLRRAAEADKNADTSADKRVADMKLAKDFATTMEEYGKLQNLAIQRE MAYKPVVPQTSQP(-) MENFKILRFKGRWHISQLFPRHLSQSRRLVITFFNWQRMRRRSSGELLRQTRTPILVQTRGLLT *(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os02g0702800_circ_g.5

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